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Team:Michigan/Modeling
From 2013.igem.org
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(→Mass action modeling) |
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===Mass action modeling=== | ===Mass action modeling=== | ||
| - | + | Definition | |
| - | • | + | • differential equations |
| + | |||
| + | • each equation is a sum of rates | ||
| + | |||
| + | • each rate is proportional to each of its reactants | ||
| + | |||
| + | [[File:mass action.jpg]] | ||
| + | |||
| + | Benefits of mass action modeling, i.e. why we used it | ||
• form of mass action models/solvability doc | • form of mass action models/solvability doc | ||
Revision as of 00:31, 28 September 2013
Contents |
Introduction
Switch modeling
• produce both states of switch
• use model to optimize switch
Mass action modeling
Definition
• differential equations
• each equation is a sum of rates
• each rate is proportional to each of its reactants
Benefits of mass action modeling, i.e. why we used it
• form of mass action models/solvability doc
Analytical modeling
• benefits
• naturally standardized • given parameters, it precisely predicts behavior
• accurately predicts the data needed to determine parameters
• allows avoidance of numerical errors like rounding
• ERSESCO
• equation
• reduction
• solution
• equilibration
• stabilization
• calibration
• optimization
SimBiology
• numerical approximation
• diagram / schematic
Model of Recombinase Expression
Model of the Switch
Model of Inducible Hbif
Expression Model
Equation:
Reduction: None
Solution:
Equilibration:
Stabilization:
Calibration:
Optimization:
SimBiology:
Switch Model
Equation:
Reduction:
Solution:
Equilibration:
Stabilization:
Calibration:
Optimization:
SimBiology:
Inducible Hbif Model
Equation:
Reduction:
Solution:
Equilibration:
Stabilization:
Calibration:
Optimization of Hbif:
Optimization of ON:
SimBiology:
Inducible Hbif Model Derivation
Future Directions
Data!
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